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Label image regionsΒΆ

This example shows how to segment an image with image labelling. The following steps are applied:

  1. Thresholding with automatic Otsu method
  2. Close small holes with binary closing
  3. Remove artifacts touching image border
  4. Measure image regions to filter small objects
../../_images/sphx_glr_plot_label_001.png
import matplotlib.pyplot as plt
import matplotlib.patches as mpatches

from skimage import data
from skimage.filters import threshold_otsu
from skimage.segmentation import clear_border
from skimage.measure import label, regionprops
from skimage.morphology import closing, square
from skimage.color import label2rgb


image = data.coins()[50:-50, 50:-50]

# apply threshold
thresh = threshold_otsu(image)
bw = closing(image > thresh, square(3))

# remove artifacts connected to image border
cleared = clear_border(bw)

# label image regions
label_image = label(cleared)
image_label_overlay = label2rgb(label_image, image=image)

fig, ax = plt.subplots(figsize=(10, 6))
ax.imshow(image_label_overlay)

for region in regionprops(label_image):
    # take regions with large enough areas
    if region.area >= 100:
        # draw rectangle around segmented coins
        minr, minc, maxr, maxc = region.bbox
        rect = mpatches.Rectangle((minc, minr), maxc - minc, maxr - minr,
                                  fill=False, edgecolor='red', linewidth=2)
        ax.add_patch(rect)

ax.set_axis_off()
plt.tight_layout()
plt.show()

Total running time of the script: ( 0 minutes 0.153 seconds)

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